Standards in Genomic Sciences · 2016 · 44 citations · 36 references
Life SciencesMicrobiologyMolecular BiologyGenomicsPhylogeneticsSequence Analysis16S Ribosomal Ribonucleic Acid AnalysisComparative Microbial GenomicsMicrobial PhylogeneticsPathogen GenomicsSequence Similarity SearchStrain Typing16S Ribosomal Rna Gene AnalysisGenome-based CharacterizationMaldi-tof IdentificationMolecular Identification Of StrainsReference Strain ComparisonsSequence SimilaritySequence Similarity ScoringType Strain Characterization
Strain FF7(T) was isolated from the peritoneal fluid of a 44-year-old woman who suffered from pelvic peritonitis. This strain exhibited a 16S rRNA sequence similarity of 94.8 % 16S rRNA sequence identity with Haemophilus parasuis, the phylogenetically closest species with a name with standing in nomenclature and a poor MALDI-TOF MS score (1.32 to 1.56) that does not allow any reliable identification. Using a polyphasic study made of phenotypic and genomic analyses, strain FF7(T) was a Gram-negative, facultatively anaerobic rod and member of the family Pasteurellaceae. It exhibited a genome of 2,442,548 bp long genome (one chromosome but no plasmid) contains 2,319 protein-coding and 67 RNA genes, including 6 rRNA operons. On the basis of these data, we propose the creation of Haemophilus massiliensis sp. nov. with strain FF7(T) (= CSUR P859 = DSM 28247) as the type strain.
36
MUSCLE: multiple sequence alignment with high accuracy and high throughput
R. C. Edgar · Nucleic Acids Research · 2004 · 46.5K citations · Full text
Gene Ontology: tool for the unification of biology
Michael Ashburner, Catherine A. Ball, Judith A. Blake et al. · Nature Genetics · 2000 · 44.6K citations · Full text
Prodigal: prokaryotic gene recognition and translation initiation site identification
Doug Hyatt, Gwo-Liang Chen, Philip LoCascio et al. · BMC Bioinformatics · 2010 · 13.1K citations · Full text